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Volumn 31, Issue 2, 2012, Pages 257-266

Extraordinary transgressive phenotypes of hybrid tomato are influenced by epigenetics and small silencing RNAs

Author keywords

hybrid phenotypes; miRNA; RNA silencing; siRNA; tomatoxs

Indexed keywords

GENOMIC DNA; PLANT RNA; SMALL INTERFERING RNA;

EID: 84857189983     PISSN: 02614189     EISSN: 14602075     Source Type: Journal    
DOI: 10.1038/emboj.2011.458     Document Type: Article
Times cited : (166)

References (68)
  • 1
    • 17444430392 scopus 로고    scopus 로고
    • MicroRNA-directed phasing during trans-acting siRNA biogenesis in plants
    • DOI 10.1016/j.cell.2005.04.004
    • Allen E, Xie Z, Gustafson AM, Carrington JC (2005) microRNAdirected phasing during Trans-Acting siRNA biogenesis in plants. Cell 121: 207-221 (Pubitemid 40546389)
    • (2005) Cell , vol.121 , Issue.2 , pp. 207-221
    • Allen, E.1    Xie, Z.2    Gustafson, A.M.3    Carrington, J.C.4
  • 2
    • 84866622527 scopus 로고    scopus 로고
    • Differential expression analysis for sequence count data
    • Anders S, Wolfgang H (2010) Differential expression analysis for sequence count data. Nat Precedings, http://hdl.handle.net/10101/npre.2010.4282.2
    • (2010) Nat Precedings
    • Anders, S.1    Wolfgang, H.2
  • 3
    • 36549053175 scopus 로고    scopus 로고
    • A genomic view of introgression and hybrid speciation
    • DOI 10.1016/j.gde.2007.09.001, PII S0959437X07001669, Genomes and Evolution
    • Baack EJ, Rieseberg LH (2007) A genomic view of introgression and hybrid speciation. Curr Opin Genet Dev 17: 513-518 (Pubitemid 350184308)
    • (2007) Current Opinion in Genetics and Development , vol.17 , Issue.6 , pp. 513-518
    • Baack, E.J.1    Rieseberg, L.H.2
  • 4
    • 4644242349 scopus 로고    scopus 로고
    • RNA silencing in plants
    • DOI 10.1038/nature02874
    • Baulcombe D (2004) RNA silencing in plants. Nature 431: 356-363 (Pubitemid 39265676)
    • (2004) Nature , vol.431 , Issue.7006 , pp. 356-363
    • Baulcombe, D.1
  • 6
    • 34247231965 scopus 로고    scopus 로고
    • Hybrid necrosis: Autoimmunity as a potential gene-flow barrier in plant species
    • DOI 10.1038/nrg2082, PII NRG2082
    • Bomblies K, Weigel D (2007) Hybrid necrosis: autoimmunity as a potential gene-flow barrier in plant species. Nat Rev Genet 8: 382-393 (Pubitemid 46625807)
    • (2007) Nature Reviews Genetics , vol.8 , Issue.5 , pp. 382-393
    • Bomblies, K.1    Weigel, D.2
  • 10
    • 57749088682 scopus 로고    scopus 로고
    • Tomato phenylalanine ammonia-lyase gene family, highly redundant but strongly underutilized
    • Chang A, Lim MH, Lee SW, Robb EJ, Nazar RN (2008) Tomato phenylalanine ammonia-lyase gene family, highly redundant but strongly underutilized. J Biol Chem 283: 33591-33601
    • (2008) J Biol Chem , vol.283 , pp. 33591-33601
    • Chang, A.1    Lim, M.H.2    Lee, S.W.3    Robb, E.J.4    Nazar, R.N.5
  • 11
    • 33847652140 scopus 로고    scopus 로고
    • Bioinformatic prediction and experimental validation of a microRNA-directed tandem transacting siRNA cascade in Arabidopsis
    • Chen HM, Li YH, Wu SH (2007) Bioinformatic prediction and experimental validation of a microRNA-directed tandem transacting siRNA cascade in Arabidopsis. Proc Natl Acad Sci USA 104: 3318-3323
    • (2007) Proc Natl Acad Sci USA , vol.104 , pp. 3318-3323
    • Chen, H.M.1    Li, Y.H.2    Wu, S.H.3
  • 12
    • 75949117260 scopus 로고    scopus 로고
    • Molecular mechanisms of polyploidy and hybrid vigor
    • Chen ZJ (2010) Molecular mechanisms of polyploidy and hybrid vigor. Trends Plant Sci 15: 57-71
    • (2010) Trends Plant Sci , vol.15 , pp. 57-71
    • Chen, Z.J.1
  • 13
    • 33846574715 scopus 로고    scopus 로고
    • The role of microRNAs in sensing nutrient stress
    • Chiou TJ (2007) The role of microRNAs in sensing nutrient stress. Plant Cell Environ 30: 323-332
    • (2007) Plant Cell Environ , vol.30 , pp. 323-332
    • Chiou, T.J.1
  • 14
    • 0027230981 scopus 로고
    • QTL analysis of transgressive segregation in an interspecific tomato cross
    • Devicente MC, Tanksley SD (1993) Qtl analysis of transgressive segregation in an interspecific tomato cross. Genetics 134: 585-596 (Pubitemid 23156953)
    • (1993) Genetics , vol.134 , Issue.2 , pp. 585-596
    • DeVicente, M.C.1    Tanksley, S.D.2
  • 15
    • 57749199958 scopus 로고    scopus 로고
    • Differential expression of miRNAs in response to salt stress in maize roots
    • Ding D, Zhang LF, Wang H, Liu ZJ, Zhang ZX, Zheng YL (2009) Differential expression of miRNAs in response to salt stress in maize roots. Ann Botany 103: 29-38
    • (2009) Ann Botany , vol.103 , pp. 29-38
    • Ding, D.1    Zhang, L.F.2    Wang, H.3    Liu, Z.J.4    Zhang, Z.X.5    Zheng, Y.L.6
  • 16
    • 0028846653 scopus 로고
    • An introgression line population of Lycopersicon pennellii in the cultivated tomato enables the identification and fine mapping of yield-associated QTL
    • Eshed Y, Zamir D (1995) An introgression line population of Lycopersicon pennellii in the cultivated tomato enables the identification and fine mapping of yield-associated QTL. Genetics 141: 1147-1162
    • (1995) Genetics , vol.141 , pp. 1147-1162
    • Eshed, Y.1    Zamir, D.2
  • 18
    • 84855985318 scopus 로고    scopus 로고
    • Salt and drought stresses induce the aberrant expression of microRNA genes in tobacco
    • Frazier TP, Sun G, Burklew CE, Zhang B (2011) Salt and drought stresses induce the aberrant expression of microRNA genes in tobacco. Mol Biotechnol 49: 159-165
    • (2011) Mol Biotechnol , vol.49 , pp. 159-165
    • Frazier, T.P.1    Sun, G.2    Burklew, C.E.3    Zhang, B.4
  • 23
    • 0037009520 scopus 로고    scopus 로고
    • Two classes of short interfering RNA in RNA silencing
    • DOI 10.1093/emboj/cdf464
    • Hamilton AJ, Voinnet O, Chappell L, Baulcombe DC (2002) Two classes of short interfering RNA in RNA silencing. EMBO J 21: 4671-4679 (Pubitemid 34984354)
    • (2002) EMBO Journal , vol.21 , Issue.17 , pp. 4671-4679
    • Hamilton, A.1    Voinnet, O.2    Chappell, L.3    Baulcombe, D.4
  • 24
    • 77955298482 scopus 로고    scopus 로고
    • BaySeq: Empirical bayesian methods for identifying differential expression in sequence count data
    • Hardcastle TJ, Kelly KA (2010) BaySeq: empirical bayesian methods for identifying differential expression in sequence count data. BMC Bioinformatics 11: 422
    • (2010) BMC Bioinformatics , vol.11 , pp. 422
    • Hardcastle, T.J.1    Kelly, K.A.2
  • 26
    • 34547093155 scopus 로고    scopus 로고
    • CyMATE: A new tool for methylation analysis of plant genomic DNA after bisulphite sequencing
    • DOI 10.1111/j.1365-313X.2007.03152.x
    • Hetzl J, Foerster AM, Raidl G, Mittelsten Scheid O (2007) CyMATE: a new tool for methylation analysis of plant genomic DNA after bisulphite sequencing. Plant J 51: 526-536 (Pubitemid 47106545)
    • (2007) Plant Journal , vol.51 , Issue.3 , pp. 526-536
    • Hetzl, J.1    Foerster, A.M.2    Raidl, G.3    Scheid, O.M.4
  • 27
    • 0345803933 scopus 로고    scopus 로고
    • Quantitative Trait Locus Analysis of Leaf Dissection in Tomato Using Lycopersicon pennellii Segmental Introgression Lines
    • Holtan HE, Hake S (2003) Quantitative trait locus analysis of leaf dissection in tomato using Lycopersicon pennellii segmental introgression lines. Genetics 165: 1541-1550 (Pubitemid 38020268)
    • (2003) Genetics , vol.165 , Issue.3 , pp. 1541-1550
    • Holtan, H.E.E.1    Hake, S.2
  • 28
    • 67849106375 scopus 로고    scopus 로고
    • Differential and dynamic regulation of miR398 in response to ABA and salt stress in Populus tremula and Arabidopsis thaliana
    • Jia XY, Wang WX, Ren LG, Chen QJ, Mendu V, Willcut B, Dinkins R, Tang XQ, Tang GL (2009) Differential and dynamic regulation of miR398 in response to ABA and salt stress in Populus tremula and Arabidopsis thaliana. Plant Mol Biol 71: 51-59
    • (2009) Plant Mol Biol , vol.71 , pp. 51-59
    • Jia, X.Y.1    Wang, W.X.2    Ren, L.G.3    Chen, Q.J.4    Mendu, V.5    Willcut, B.6    Dinkins, R.7    Tang, X.Q.8    Tang, G.L.9
  • 29
    • 0000034235 scopus 로고
    • Phenylalanine ammonia-lyase-regulation of its induction, and its role in plant development
    • Jones DH (1984) Phenylalanine ammonia-lyase-regulation of its induction, and its role in plant development. Phytochemistry 23: 1349-1359
    • (1984) Phytochemistry , vol.23 , pp. 1349-1359
    • Jones, D.H.1
  • 30
    • 2942672580 scopus 로고    scopus 로고
    • Computational identification of plant MicroRNAs and their targets, including a stress-induced miRNA
    • DOI 10.1016/j.molcel.2004.05.027, PII S1097276504003284
    • Jones-Rhoades MW, Bartel DP (2004) Computational identification of plant MicroRNAs and their targets, including a stress-induced miRNA. Mol Cell 14: 787-799 (Pubitemid 38780852)
    • (2004) Molecular Cell , vol.14 , Issue.6 , pp. 787-799
    • Jones-Rhoades, M.W.1    Bartel, D.P.2
  • 32
    • 26444444258 scopus 로고    scopus 로고
    • Extensive chromosomal repatterning and the evolution of sterility barriers in hybrid sunflower species
    • DOI 10.1534/genetics.105.042242
    • Lai Z, Nakazato T, Salmaso M, Burke JM, Tang SX, Knapp SJ, Rieseberg LH (2005) Extensive chromosomal repatterning and the evolution of sterility barriers in hybrid sunflower species. Genetics 171: 291-303 (Pubitemid 41437559)
    • (2005) Genetics , vol.171 , Issue.1 , pp. 291-303
    • Lai, Z.1    Nakazato, T.2    Salmaso, M.3    Burke, J.M.4    Tang, S.5    Knapp, S.J.6    Rieseberg, L.H.7
  • 33
    • 77249170184 scopus 로고    scopus 로고
    • Establishing, maintaining and modifying DNA methylation patterns in plants and animals
    • Law JA, Jacobsen SE (2010) Establishing, maintaining and modifying DNA methylation patterns in plants and animals. Nat Rev Genet 11: 204-220
    • (2010) Nat Rev Genet , vol.11 , pp. 204-220
    • Law, J.A.1    Jacobsen, S.E.2
  • 34
    • 36549080467 scopus 로고    scopus 로고
    • An integrated view of quantitative trait variation using tomato interspecific introgression lines
    • DOI 10.1016/j.gde.2007.07.007, PII S0959437X07001256, Genomes and Evolution
    • Lippman ZB, Semel Y, Zamir D (2007) An integrated view of quantitative trait variation using tomato interspecific introgression lines. Curr Opin Genet Dev 17: 545-552 (Pubitemid 350184303)
    • (2007) Current Opinion in Genetics and Development , vol.17 , Issue.6 , pp. 545-552
    • Lippman, Z.B.1    Semel, Y.2    Zamir, D.3
  • 35
    • 33846543858 scopus 로고    scopus 로고
    • Heterosis: Revisiting the magic
    • DOI 10.1016/j.tig.2006.12.006, PII S0168952506004094
    • Lippman ZB, Zamir D (2007) Heterosis: revisiting the magic. Trends Genet 23: 60-66 (Pubitemid 46161217)
    • (2007) Trends in Genetics , vol.23 , Issue.2 , pp. 60-66
    • Lippman, Z.B.1    Zamir, D.2
  • 36
    • 0033645667 scopus 로고    scopus 로고
    • Retrotransposon activation followed by rapid repression in introgressed rice plants
    • Liu B, Wendel JF (2000) Retrotransposon activation followed by rapid repression in introgressed rice plants. Genome 43: 874-880
    • (2000) Genome , vol.43 , pp. 874-880
    • Liu, B.1    Wendel, J.F.2
  • 38
    • 10644237968 scopus 로고    scopus 로고
    • RNAi-mediated pathways in the nucleus
    • DOI 10.1038/nrg1500
    • Matzke MA, Birchler JA (2005) RNAi-mediated pathways in the nucleus. Nat Rev Genet 6: 24-35 (Pubitemid 39657895)
    • (2005) Nature Reviews Genetics , vol.6 , Issue.1 , pp. 24-35
    • Matzke, M.A.1    Birchler, J.A.2
  • 40
    • 57749186418 scopus 로고    scopus 로고
    • Epigenetic, transposon and small RNA determinants of hybrid dysfunctions
    • DOI 10.1038/hdy.2008.48, PII HDY200848
    • Michalak P (2009) Epigenetic, transposon and small RNA determinants of hybrid dysfunctions. Heredity 102: 45-50 (Pubitemid 50215875)
    • (2009) Heredity , vol.102 , Issue.1 , pp. 45-50
    • Michalak, P.1
  • 44
    • 4644286235 scopus 로고    scopus 로고
    • SGS3 and SGS2/SDE1/RDR6 are required for juvenile development and the production of trans-acting siRNAs in Arabidopsis
    • DOI 10.1101/gad.1231804
    • Peragine A, Yoshikawa M, Wu G, Albrecht HL, Poethig RS (2004) SGS3 and SGS2/SDE1/RDR6 are required for juvenile development and the production of trans-acting siRNAs in Arabidopsis. Gen Dev 18: 2368-2379 (Pubitemid 39304684)
    • (2004) Genes and Development , vol.18 , Issue.19 , pp. 2368-2379
    • Peragine, A.1    Yoshikawa, M.2    Wu, G.3    Albrecht, H.L.4    Poethig, R.S.5
  • 46
    • 0039803623 scopus 로고
    • Inheritance of five new tomato seedling characters
    • Rick CM, Harrison AL (1959) Inheritance of five new tomato seedling characters. J Hered 50: 91-98
    • (1959) J Hered , vol.50 , pp. 91-98
    • Rick, C.M.1    Harrison, A.L.2
  • 47
    • 0032755574 scopus 로고    scopus 로고
    • Transgressive segregation, adaptation and speciation
    • Rieseberg LH, Archer MA, Wayne RK (1999) Transgressive segregation, adaptation and speciation. Heredity 83: 363-372 (Pubitemid 29511313)
    • (1999) Heredity , vol.83 , Issue.4 , pp. 363-372
    • Rieseberg, L.H.1    Archer, M.A.2    Wayne, R.K.3
  • 48
    • 0030049365 scopus 로고    scopus 로고
    • Role of gene interactions in hybrid speciation: Evidence from ancient and experimental hybrids
    • Rieseberg LH, Sinervo B, Linder CR, Ungerer MC, Arias DM (1996) Role of gene interactions in hybrid speciation: evidence from ancient and experimental hybrids. Science 272: 741-745 (Pubitemid 26000281)
    • (1996) Science , vol.272 , Issue.5262 , pp. 741-745
    • Rieseberg, L.H.1    Sinervo, B.2    Linder, C.R.3    Ungerer, M.C.4    Arias, D.M.5
  • 50
    • 0002788379 scopus 로고
    • Extraction of DNA from milligram amounts of fresh, herbarium and mummified plant-tissues
    • Rogers SO, Bendich AJ (1985) Extraction of DNA from milligram amounts of fresh, herbarium and mummified plant-tissues. Plant Mol Biol 5: 69-76
    • (1985) Plant Mol Biol , vol.5 , pp. 69-76
    • Rogers, S.O.1    Bendich, A.J.2
  • 52
    • 54149090305 scopus 로고    scopus 로고
    • Biochemical networks and epistasis shape the Arabidopsis thaliana metabolome
    • DOI 10.1105/tpc.108.058131
    • Rowe HC, Hansen BG, Halkier BA, Kliebenstein DJ (2008) Biochemical networks and epistasis shape the Arabidopsis thaliana metabolome. Plant Cell 20: 1199-1216 (Pubitemid 352844177)
    • (2008) Plant Cell , vol.20 , Issue.5 , pp. 1199-1216
    • Rowe, H.C.1    Hansen, B.G.2    Halkier, B.A.3    Kliebenstein, D.J.4
  • 53
    • 16344367626 scopus 로고    scopus 로고
    • Genetic and epigenetic consequences of recent hybridization and polyploidy in Spartina (Poaceae)
    • DOI 10.1111/j.1365-294X.2005.02488.x
    • Salmon A, Ainouche ML, Wendel JF (2005) Genetic and epigenetic consequences of recent hybridization and polyploidy in Spartina (Poaceae). Mol Ecol 14: 1163-1175 (Pubitemid 40466242)
    • (2005) Molecular Ecology , vol.14 , Issue.4 , pp. 1163-1175
    • Salmon, A.1    Ainouche, M.L.2    Wendel, J.F.3
  • 55
    • 44949231424 scopus 로고    scopus 로고
    • T method
    • DOI 10.1038/nprot.2008.73, PII NPROT.2008.73
    • Schmittgen TD, Livak KJ (2008) Analyzing real-time PCR data by the comparative C-T method. Nat Protocols 3: 1101-1108 (Pubitemid 351818697)
    • (2008) Nature Protocols , vol.3 , Issue.6 , pp. 1101-1108
    • Schmittgen, T.D.1    Livak, K.J.2
  • 57
    • 0034866855 scopus 로고    scopus 로고
    • Sequence elimination and cytosine methylation are rapid and reproducible responses of the genome to wide hybridization and allopolyploidy in wheat
    • DOI 10.1105/tpc.13.8.1749
    • Shaked H, Kashkush K, Ozkan H, Feldman M, Levy AA (2001) Sequence elimination and cytosine methylation are rapid and reproducible responses of the genome to wide hybridization and allopolyploidy in wheat. Plant Cell 13: 1749-1759 (Pubitemid 32781988)
    • (2001) Plant Cell , vol.13 , Issue.8 , pp. 1749-1759
    • Shaked, H.1    Kashkush, K.2    Ozkan, H.3    Feldman, M.4    Levy, A.A.5
  • 58
    • 0035966290 scopus 로고    scopus 로고
    • Meiotic silencing by unpaired DNA
    • DOI 10.1016/S0092-8674(01)00609-2
    • Shiu PKT, Raju NB, Zickler D, Metzenberg RL (2001) Meiotic silencing by unpaired DNA. Cell 107: 905-916 (Pubitemid 34084981)
    • (2001) Cell , vol.107 , Issue.7 , pp. 905-916
    • Shiu, P.K.T.1    Raju, N.B.2    Zickler, D.3    Metzenberg, R.L.4
  • 60
    • 0030880972 scopus 로고    scopus 로고
    • Seed banks and molecular maps: Unlocking genetic potential from the wild
    • DOI 10.1126/science.277.5329.1063
    • Tanksley SD, McCouch SR (1997) Seed banks and molecular maps: Unlocking genetic potential from the wild. Science 277: 1063-1066 (Pubitemid 27371620)
    • (1997) Science , vol.277 , Issue.5329 , pp. 1063-1066
    • Tanksley, S.D.1    McCouch, S.R.2
  • 61
    • 77953807770 scopus 로고    scopus 로고
    • Repeat elements and the Arabidopsis DNA methylation landscape
    • Teixeira FK, Colot V (2010) Repeat elements and the Arabidopsis DNA methylation landscape. Heredity 105: 14-23
    • (2010) Heredity , vol.105 , pp. 14-23
    • Teixeira, F.K.1    Colot, V.2
  • 64
    • 33644924397 scopus 로고    scopus 로고
    • Methods and concepts in quantifying resistance to drought, salt and freezing, abiotic stresses that affect plant water status
    • DOI 10.1111/j.1365-313X.2005.02593.x
    • Verslues PE, Agarwal M, Katiyar-Agarwal S, Zhu JH, Zhu JK (2006) Methods and concepts in quantifying resistance to drought, salt and freezing, abiotic stresses that affect plant water status. Plant J 45: 523-539 (Pubitemid 43378973)
    • (2006) Plant Journal , vol.45 , Issue.4 , pp. 523-539
    • Verslues, P.E.1    Agarwal, M.2    Katiyar-Agarwal, S.3    Zhu, J.4    Zhu, J.-K.5
  • 65
    • 0037072661 scopus 로고    scopus 로고
    • Regulation of heterochromatic silencing and histone H3 lysine-9 methylation by RNAi
    • DOI 10.1126/science.1074973
    • Volpe T, Kidner C, Hall IM, Teng G, Grewal SIS, Martienssen R (2002) Regulation of heterochromatic silencing and histone H3 lysine-9 methylation by RNAi. Science 297: 1833-1837 (Pubitemid 35024336)
    • (2002) Science , vol.297 , Issue.5588 , pp. 1833-1837
    • Volpe, T.A.1    Kidner, C.2    Hall, I.M.3    Teng, G.4    Grewal, S.I.S.5    Martienssen, R.A.6
  • 66
    • 23344452977 scopus 로고    scopus 로고
    • FRIGIDA-independent variation in flowering time of natural Arabidopsis thaliana accessions
    • DOI 10.1534/genetics.104.036533
    • Werner JD, Borevitz JO, Uhlenhaut NH, Ecker JR, Chory J, Weigel D (2005) FRIGIDA-independent variation in flowering time of natural Arabidopsis thaliana accessions. Genetics 170: 1197-1207 (Pubitemid 41105475)
    • (2005) Genetics , vol.170 , Issue.3 , pp. 1197-1207
    • Werner, J.D.1    Borevitz, J.O.2    Henriette Uhlenhaut, N.3    Ecker, J.R.4    Chory, J.5    Weigel, D.6
  • 67
    • 55449131096 scopus 로고    scopus 로고
    • Noncoding transcription by RNA polymerase Pol IVb/Pol v mediates transcriptional silencing of overlapping and adjacent genes
    • Wierzbicki AT, Haag JR, Pikaard CS (2008) Noncoding transcription by RNA polymerase Pol IVb/Pol V mediates transcriptional silencing of overlapping and adjacent genes. Cell 135: 635-648
    • (2008) Cell , vol.135 , pp. 635-648
    • Wierzbicki, A.T.1    Haag, J.R.2    Pikaard, C.S.3


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